Exploratory Cold Shock Markers

Integrated Data Processing

1. Data was integrated and processed to identify initial clusters.
   • Resolution was set to get roughly 4 clusters.
   • Matched clusters accross datasets were retained
2. Subsequent data analysis was performed on individually normalized data-sets.

Global Marker analysis

1. Differential Expression Analysis was performed independent of cell cycle phase using WT as base line.

Expression of top genes

1. Up regulation is mild but steady.

2. Proportion of cells expressing is not changing much.

1. Down regulation is stranger
2. Proportion of cells expressing declines more.

Clustering DEGs

1. Hierarchical clustering was performed and expression heatmaps were generated

Matched Marker analysis

1. Integrated data was used to identify matched clusters.

2. In each data sets, markers of clusters were identified

3. Cluster markers were pooled across datasets

4. For each cluster differential expression was performed on pooled marker of the cluster using WT as ctr

Expression of top genes

1. up regulated

1. down regulated

Clustering DEGs

1. Hierarchical clustering was performed per phase and expression heatmaps were generated